This tool compares nucleotide or protein sequences to genomic sequence databases and calculates the statistical significance of matches using the Basic Local Alignment Search Tool (BLAST) algorithm. screenshot of ALVIS (chimeric alignment viewer). Connection to the Internet is required for access to the NCBI databases. Tags: Commercial, MSA, SV, Coverage, Alignments viewer, Comparative. Minimum memory required is 4 mb of RAM, though at least 6 mb of RAM is recommended. CD-Search uses RPS-BLAST (Reverse Position-Specific BLAST) to compare a query sequence against position-specific score matrices that have been prepared from conserved domain alignments present in the Conserved Domain Database (CDD). MacVector 6.5 is designed to run on MacOS 7.1 or higher and requires a CD-ROM drive and 18 mb of disk space. Smart NGS file importing allows you to import any assortment of SAM, BAM, GFF, BED, and VCF files in one easy step, even if you have a mixture of different samples and reference sequences. Identifies the conserved domains present in a protein sequence. Dedicated importer for Vector NTI Express and Advance databases preserves metadata, full database structure including subsets, and lineage information. Conserved Domain Search Service (CD Search) internet database searching, protein analysis, sequence confirmation, multiple sequence alignment, phylogenetic reconstruction, coding region analysis. The algorithm uses three comparison steps. You can add many DNA sequences, switch the display to show the translations of those DNA sequences, and then align those sequences based on the amino acid sequence. MacVector uses a variation ( 1) of the Wilbur-Lipman-Pearson algorithm ( 2 5) to find a best pairwise alignment between a single query sequence in memory and one or more other sequences stored in a folder on disk. CGVĬompare genomes based on assembly-assembly alignments COBALTĬOBALT is a protein multiple sequence alignment tool that finds a collection of pairwise constraints derived from conserved domain database, protein motif database, and sequence similarity, using RPS-BLAST, BLASTP, and PHI-BLAST. Kevin Kendall, said 'Being able to align DNA sequences based on their amino acid translations is a feature we're excited to bring to MacVector's users. It has many similarities to sequence assembly, except that it uses a known reference sequence as a scaffold. BLAST can be used to infer functional and evolutionary relationships between sequences as well as to help identify members of gene families. MacVector has a unique sequence confirmation functionality that lets you align one or more chromatogram sample files against a reference sequence. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. Shown below is an example of a MacVector file viewed with the original program and with SnapGene. Home Features Convert File Formats MacVector SnapGene and SnapGene Viewer can read sequence and primer files created by MacVector. Tools Basic Local Alignment Search Tool (BLAST)įinds regions of local similarity between biological sequences. MacVector SnapGene reads NA sequence files created by MacVector, including files with the.
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